LAMMPS (27 Nov 2018)
  using 1 OpenMP thread(s) per MPI task
# Simple rigid body system

units		lj
atom_style	atomic

pair_style	lj/cut 2.5

read_data	data.rigid
  orthogonal box = (-12 -12 -12) to (12 12 12)
  1 by 1 by 1 MPI processor grid
  reading atoms ...
  81 atoms

velocity 	all create 100.0 4928459

# unconnected bodies

#group		clump1 id <> 1 9
#group		clump2 id <> 10 18
#group		clump3 id <> 19 27
#group		clump4 id <> 28 36
#group		clump5 id <> 37 45
#group		clump6 id <> 46 54
#group		clump7 id <> 55 63
#group		clump8 id <> 64 72
#group		clump9 id <> 73 81

#fix 1 all rigid group 9 clump1 clump2 clump3 clump4 clump5 #	  	      clump6 clump7 clump8 clump9

# 1 chain of connected bodies

#group		clump1 id <> 1 9
#group		clump2 id <> 9 18
#group		clump3 id <> 18 27
#group		clump4 id <> 27 36
#group		clump5 id <> 36 45
#group		clump6 id <> 45 54
#group		clump7 id <> 54 63
#group		clump8 id <> 63 72
#group		clump9 id <> 72 81

#fix 1 all poems group clump1 clump2 clump3 clump4 clump5 #	  	      clump6 clump7 clump8 clump9

# 2 chains of connected bodies

group		clump1 id <> 1 9
9 atoms in group clump1
group		clump2 id <> 9 18
10 atoms in group clump2
group		clump3 id <> 18 27
10 atoms in group clump3
group		clump4 id <> 27 36
10 atoms in group clump4
group		clump5 id <> 37 45
9 atoms in group clump5
group		clump6 id <> 45 54
10 atoms in group clump6
group		clump7 id <> 54 63
10 atoms in group clump7
group		clump8 id <> 63 72
10 atoms in group clump8
group		clump9 id <> 72 81
10 atoms in group clump9

fix 1 all poems group clump1 clump2 clump3 clump4
1 clusters, 4 bodies, 3 joints, 36 atoms
fix 2 all poems group clump5 clump6 clump7 clump8 clump9
1 clusters, 5 bodies, 4 joints, 45 atoms

neigh_modify	exclude group clump1 clump1
neigh_modify	exclude group clump2 clump2
neigh_modify	exclude group clump3 clump3
neigh_modify	exclude group clump4 clump4
neigh_modify	exclude group clump5 clump5
neigh_modify	exclude group clump6 clump6
neigh_modify	exclude group clump7 clump7
neigh_modify	exclude group clump8 clump8
neigh_modify	exclude group clump9 clump9

thermo		100

#dump		1 all atom 50 dump.rigid.poems2

#dump		2 all image 100 image.*.jpg type type #		axes yes 0.8 0.02 view 60 -30
#dump_modify	2 pad 5

#dump		3 all movie 100 movie.mpg type type #		axes yes 0.8 0.02 view 60 -30
#dump_modify	3 pad 5

timestep 	0.0001
thermo		50
run		10000
WARNING: More than one fix poems (src/POEMS/fix_poems.cpp:363)
WARNING: More than one fix poems (src/POEMS/fix_poems.cpp:363)
WARNING: One or more atoms are time integrated more than once (src/modify.cpp:283)
Neighbor list info ...
  update every 1 steps, delay 10 steps, check yes
  max neighbors/atom: 2000, page size: 100000
  master list distance cutoff = 2.8
  ghost atom cutoff = 2.8
  binsize = 1.4, bins = 18 18 18
  1 neighbor lists, perpetual/occasional/extra = 1 0 0
  (1) pair lj/cut, perpetual
      attributes: half, newton on
      pair build: half/bin/atomonly/newton
      stencil: half/bin/3d/newton
      bin: standard
Per MPI rank memory allocation (min/avg/max) = 3.854 | 3.854 | 3.854 Mbytes
Step Temp E_pair E_mol TotEng Press 
       0    196.00047    3632.2347            0    3668.5311   -2.7403788 
      50    12167.633    1505.5478            0    3758.8133    35.125973 
     100    17556.978    512.66277            0    3763.9549    11.137534 
     150    19579.586    138.04942            0    3763.8987   -29.953971 
     200     19757.51    105.30542            0    3764.1036 -0.030645317 
     250    18218.374    390.10747            0    3763.8804    13.711001 
     300    19383.039    174.40688            0    3763.8586    5.7240693 
     350    20125.986    36.972611            0    3764.0071    1.9559205 
     400    18888.816    266.10975            0    3764.0386    9.6362168 
     450    19307.656     188.2511            0     3763.743    1.9326206 
     500    16331.197    738.56392            0    3762.8597    9.1715579 
     550    19318.722    186.16172            0    3763.7027    3.0115336 
     600    19455.268    161.20621            0    3764.0336   0.55208034 
     650    18487.011    340.03216            0    3763.5528   -8.0359122 
     700    17321.201    556.32471            0    3763.9545   -13.631751 
     750    18979.187    249.04389            0    3763.7082   -2.6072455 
     800    19342.456    181.85552            0    3763.7918    8.1918726 
     850    19070.641    232.19342            0    3763.7936    7.3148472 
     900    19478.873    156.65987            0    3763.8586    2.4284987 
     950    19912.415    76.437437            0    3763.9216   -1.4667227 
    1000    16003.749    802.39753            0    3766.0548    46.642188 
    1050    19859.583     86.64176            0    3764.3424   -2.1961943 
    1100    19229.575    203.61488            0    3764.6473   -10.632365 
    1150      18821.6    279.15861            0      3764.64  -0.89495035 
    1200    19392.695    173.59744            0    3764.8373    1.8508753 
    1250    16459.624    717.32104            0    3765.3995    33.478127 
    1300    19343.863    182.59043            0    3764.7874   0.75890736 
    1350    20019.643    57.503573            0    3764.8448   0.31444671 
    1400    18549.582    329.31436            0    3764.4221    10.738303 
    1450    15163.926    957.47585            0    3765.6103   -17.923459 
    1500    19223.688    204.15175            0    3764.0939   -1.6134531 
    1550    18147.996    404.12677            0    3764.8668    8.4194779 
    1600    18615.043    317.42467            0    3764.6548   -2.3288934 
    1650    20120.654    38.887913            0     3764.935   -8.7620277 
    1700    19450.907    162.98272            0    3765.0025    2.3254731 
    1750    19374.632    177.37966            0    3765.2744    8.9328774 
    1800    19424.404    167.93966            0    3765.0514  0.081230261 
    1850    17936.249    442.84231            0    3764.3699    6.6010636 
    1900    19982.595    64.406198            0    3764.8868   -2.9529813 
    1950    16215.852    761.91287            0    3764.8485    13.994708 
    2000    18584.422    322.12049            0      3763.68    7.1654003 
    2050    20107.965    41.025754            0     3764.723   -0.3109069 
    2100    20002.333    60.593017            0    3764.7288   -6.7919784 
    2150    16949.762    626.59623            0     3765.441     3.508941 
    2200    20010.953    58.808279            0    3764.5403   -10.862172 
    2250     18982.73    247.00892            0    3762.3292  -0.53807815 
    2300    18401.298    354.87973            0    3762.5274    1.0920554 
    2350    19390.524     172.9415            0    3763.7793   -3.3524932 
    2400    16080.801    786.38838            0    3764.3146   -16.200514 
    2450    18870.412    268.74976            0    3763.2705    11.197736 
    2500     19688.29    117.58223            0    3763.5618     4.382644 
    2550    18870.825    268.78678            0     3763.384   -5.6623656 
    2600     17019.35    611.70808            0    3763.4395    6.3109641 
    2650    18753.285     291.0596            0    3763.8902    2.4120296 
    2700    19742.456    107.20901            0    3763.2193  -0.33061303 
    2750    19522.438    148.16759            0    3763.4339   -1.6254851 
    2800    18304.801    372.55152            0    3762.3295      22.6368 
    2850     18465.36    343.48495            0    3762.9961    4.4169272 
    2900    20151.999    31.372926            0    3763.2245    1.2013699 
    2950    15498.143    892.80071            0    3762.8272    13.263724 
    3000    18728.301    294.65113            0     3762.855    8.1897838 
    3050    18538.466    330.25223            0    3763.3015    8.5865739 
    3100    19081.409     229.5907            0    3763.1849   -4.8573813 
    3150    18498.802    337.11548            0    3762.8195    1.0555321 
    3200    19925.897    73.358029            0     3763.339   -7.7325108 
    3250    19780.108    100.23785            0    3763.2209   -5.5974972 
    3300    19221.043    203.82387            0    3763.2763    4.2703251 
    3350    19025.292    240.11329            0    3763.3156    5.7708328 
    3400    18153.696    401.52086            0    3763.3164    21.076943 
    3450    18611.375    316.50396            0    3763.0548   -3.5484945 
    3500    19931.319    71.969274            0    3762.9543    1.8764978 
    3550    19747.562    106.05439            0    3763.0103   -2.5506186 
    3600     18491.39     338.4134            0    3762.7449   -4.0527808 
    3650    19757.998    104.19207            0    3763.0806    1.4865598 
    3700    20108.003    39.345514            0    3763.0498  0.062827129 
    3750    19222.505    203.28065            0    3763.0039   0.33719277 
    3800    19286.383    191.08831            0    3762.6406   -0.1826802 
    3850    19450.083    161.09138            0    3762.9587   -0.2708263 
    3900    18002.304    429.25655            0    3763.0166   -4.6832439 
    3950    17186.829    582.26502            0    3765.0111    55.816834 
    4000    16826.434    645.84974            0     3761.856    19.675962 
    4050    19227.526    202.18151            0    3762.8344   -0.2596098 
    4100    19908.792    76.084531            0    3762.8978    -2.796813 
    4150    17821.329    462.63065            0    3762.8768    13.069155 
    4200    19917.133    74.574998            0    3762.9329   -6.4181155 
    4250    19012.618    241.96787            0     3762.823    4.0847974 
    4300     19077.34    229.98133            0    3762.8221     4.324323 
    4350    19361.128    177.47406            0    3762.8681    -7.377974 
    4400    18565.044    324.95107            0    3762.9223    2.5229032 
    4450    19352.406    178.98756            0    3762.7665   0.10862717 
    4500    18482.218    340.15496            0     3762.788    12.518301 
    4550    18359.732    362.83749            0    3762.7879    3.7500902 
    4600    19623.618    128.71624            0    3762.7196   -1.1328521 
    4650    17565.707    509.99904            0    3762.9078    1.7135935 
    4700    19876.052    81.892814            0    3762.6431   0.32476108 
    4750    19022.676    239.92262            0    3762.6403  -0.24613022 
    4800    18862.685    269.24248            0    3762.3324    6.2733979 
    4850    19899.174    77.426145            0    3762.4584   0.42535238 
    4900    18250.865    382.72867            0    3762.5185    23.308462 
    4950    18895.847    263.22651            0    3762.4575    8.0634675 
    5000    19096.705    225.69358            0    3762.1204    3.6816481 
    5050    16546.294    698.91312            0    3763.0416    17.453618 
    5100    19501.208    151.20999            0    3762.5449   -1.1231291 
    5150    19479.879    155.00669            0    3762.3917    -3.983378 
    5200    17397.818    541.23039            0    3763.0485    6.1109992 
    5250    18564.869    324.10557            0    3762.0442    9.2244762 
    5300    16271.663    747.52374            0    3760.7947   -6.5256602 
    5350    19831.418    89.851887            0    3762.3367   -2.3453958 
    5400    18723.697    294.67435            0    3762.0256    4.6822081 
    5450     19547.28    142.21934            0     3762.086   -5.5243408 
    5500    19415.447    166.68729            0    3762.1404   -9.5658991 
    5550    18492.721    337.54773            0    3762.1256    6.5184903 
    5600    19391.389    171.14375            0    3762.1416  -0.53835361 
    5650    18503.465    334.62751            0    3761.1951    4.6580363 
    5700    18153.344    399.91064            0    3761.6409    12.851587 
    5750    18342.297    365.14769            0    3761.8694    2.7148176 
    5800    19583.241    135.64969            0    3762.1758    -1.089608 
    5850    15967.283    804.18382            0     3761.088    11.278762 
    5900    19040.271    235.35509            0    3761.3312    5.1352158 
    5950    17920.962    443.17951            0    3761.8762    4.9621366 
    6000     19100.92     224.3946            0     3761.602    -9.537589 
    6050    17982.119     432.3251            0    3762.3472    -2.851617 
    6100    16233.096    755.46191            0    3761.5908    25.113316 
    6150    18316.543    370.01118            0    3761.9635   -1.7445703 
    6200    18483.464    339.13282            0    3761.9966   -2.0857447 
    6250    18609.406    315.56032            0    3761.7467   -12.289208 
    6300    17167.919    582.68212            0    3761.9264   -3.8263397 
    6350    17870.329    452.58116            0    3761.9013   -3.3843134 
    6400    19309.717    186.11786            0    3761.9913   -4.9462739 
    6450    17964.073    435.39924            0    3762.0794    12.272972 
    6500    18772.847    285.61959            0    3762.0727    6.7928648 
    6550    18915.116    259.41365            0     3762.213   -4.1449761 
    6600    19446.628    161.18763            0     3762.415   -2.1906581 
    6650    16348.787    734.99282            0     3762.546   -9.9624546 
    6700    19066.684    231.43863            0    3762.3061    -5.362833 
    6750    14890.323     1004.547            0    3762.0143    37.373013 
    6800     18235.19      385.253            0    3762.1401   0.21012662 
    6850    16447.997    716.11276            0    3762.0382   -9.2095411 
    6900    18343.362    364.81902            0    3761.7379    10.417932 
    6950    16014.084    797.13348            0    3762.7046    6.7906777 
    7000    19120.393    221.29236            0    3762.1059   -1.3461375 
    7050    18055.409    418.30136            0    3761.8957    1.5772317 
    7100    18407.231    353.41868            0    3762.1652   0.61071769 
    7150    18728.136    293.64021            0    3761.8136    5.1649654 
    7200    17706.628    483.07628            0    3762.0815    18.000708 
    7250    19349.505    178.89673            0    3762.1385     2.540201 
    7300    20016.293    55.389159            0    3762.1101   -1.5793163 
    7350    19398.573    169.86661            0    3762.1949    -5.060123 
    7400    19466.526    157.37407            0    3762.2862    1.7158273 
    7450    18440.348    347.09196            0    3761.9712    12.781963 
    7500    19989.907    60.555934            0    3762.3906   -1.5033319 
    7550     19667.28    120.27403            0     3762.363   -3.3502366 
    7600    18497.707    336.15863            0      3761.66    1.7887539 
    7650    17901.957    447.17282            0    3762.3501  0.016725252 
    7700    19758.725     103.3129            0    3762.3361   -23.534448 
    7750    19443.957     161.6532            0     3762.386   -10.323924 
    7800    19776.178     100.1773            0    3762.4324    6.0854422 
    7850    19242.512    198.86705            0    3762.2952    5.2823659 
    7900    19499.929    151.30366            0    3762.4017    12.299911 
    7950    19630.317    127.19541            0    3762.4393    8.0799632 
    8000    19872.384    82.421129            0    3762.4923    2.2126691 
    8050    17747.038    476.27982            0    3762.7683   -7.7042786 
    8100    18832.654    274.78106            0    3762.3095    13.882157 
    8150    19949.814     68.09711            0    3762.5072  -0.54410896 
    8200    17555.866    511.02517            0    3762.1115    6.2471175 
    8250      17800.1     465.9992            0     3762.314    13.583485 
    8300    19755.224    103.89732            0    3762.2721    -1.487243 
    8350     17583.61    506.17539            0    3762.3995   -9.7819128 
    8400    18529.003    330.75623            0    3762.0532    14.731228 
    8450    20155.902    29.797078            0    3762.3716   -8.5711085 
    8500    18047.548    420.54645            0     3762.685    7.3875118 
    8550    19790.794    97.493375            0    3762.4553   -3.3427911 
    8600    19997.902    59.172074            0    3762.4874    3.3479688 
    8650    19987.319    61.148363            0    3762.5037    -1.889232 
    8700     19363.91    176.41833            0    3762.3276   -9.4291288 
    8750    18712.689     296.3979            0    3761.7107    5.9221369 
    8800     19783.17    98.860518            0    3762.4105   -3.5262066 
    8850    18796.049    281.60057            0    3762.3504   -8.2913002 
    8900    16738.277    662.62261            0    3762.3035    8.5838631 
    8950    17869.613    452.25006            0    3761.4377    11.561101 
    9000    18682.512    302.27997            0    3762.0043    3.8878724 
    9050    17513.759    518.50265            0    3761.7914     23.05778 
    9100    17500.686    521.57944            0    3762.4473   -2.8435751 
    9150    19645.683    124.43597            0    3762.5254   -3.0193092 
    9200    18898.897    262.76552            0    3762.5612    3.5891701 
    9250    20114.279    37.614866            0    3762.4813  -0.58120871 
    9300    19562.613    139.54073            0    3762.2468   -3.2630158 
    9350    19679.811    118.05865            0     3762.468   -3.4644363 
    9400    19297.384    188.84527            0    3762.4349   0.40498037 
    9450    18267.029    379.52581            0     3762.309  -0.13762867 
    9500    19951.072     67.63844            0    3762.2814    -7.575539 
    9550    19134.562    218.46835            0    3761.9057   -1.9626244 
    9600    19089.093    227.29178            0    3762.3089     -1.94158 
    9650    16964.603    620.71289            0    3762.3061    16.987042 
    9700    18846.881     271.3129            0    3761.4761    3.4458802 
    9750    19309.225     186.0142            0    3761.7966    9.4048627 
    9800    16359.704    733.51007            0    3763.0849    15.870164 
    9850    19958.532    66.203725            0    3762.2282    6.0043645 
    9900    19864.564    83.502384            0    3762.1253  -0.65360617 
    9950    18996.789    244.25101            0    3762.1749   -2.4961826 
   10000    17933.494    441.33587            0    3762.3532   -6.0731708 
Loop time of 6.84978 on 1 procs for 10000 steps with 81 atoms

Performance: 12613.550 tau/day, 1459.902 timesteps/s
96.9% CPU use with 1 MPI tasks x 1 OpenMP threads

MPI task timing breakdown:
Section |  min time  |  avg time  |  max time  |%varavg| %total
---------------------------------------------------------------
Pair    | 0.1054     | 0.1054     | 0.1054     |   0.0 |  1.54
Neigh   | 0.081336   | 0.081336   | 0.081336   |   0.0 |  1.19
Comm    | 0.017124   | 0.017124   | 0.017124   |   0.0 |  0.25
Output  | 0.0050254  | 0.0050254  | 0.0050254  |   0.0 |  0.07
Modify  | 6.6313     | 6.6313     | 6.6313     |   0.0 | 96.81
Other   |            | 0.00962    |            |       |  0.14

Nlocal:    81 ave 81 max 81 min
Histogram: 1 0 0 0 0 0 0 0 0 0
Nghost:    71 ave 71 max 71 min
Histogram: 1 0 0 0 0 0 0 0 0 0
Neighs:    612 ave 612 max 612 min
Histogram: 1 0 0 0 0 0 0 0 0 0

Total # of neighbors = 612
Ave neighs/atom = 7.55556
Neighbor list builds = 989
Dangerous builds = 906

Please see the log.cite file for references relevant to this simulation

Total wall time: 0:00:06
